data_5C3J # _model_server_result.job_id 8vsnyHTA_YU1EoPreNv1Sg _model_server_result.datetime_utc '2024-11-06 01:45:37' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 5c3j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"X","auth_seq_id":201}' # _entry.id 5C3J # _exptl.entry_id 5C3J _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 709.933 _entity.id 12 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description L-ALPHA-PHOSPHATIDYL-BETA-OLEOYL-GAMMA-PALMITOYL-PHOSPHATIDYLETHANOLAMINE _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 5C3J _cell.length_a 123.75 _cell.length_b 126.827 _cell.length_c 220.449 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5C3J _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA tetrameric 4 author_and_software_defined_assembly 1 PISA tetrameric 4 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,I,J,K,L,M,N,O,P 1 1 E,F,G,H,Q,R,S,T,U,V,W,X 2 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 12 P N N ? 12 X N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 B SG CYS 89 B CYS 89 1_555 K FE2 FES . B FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.274 ? metalc ? metalc2 B SG CYS 94 B CYS 94 1_555 K FE2 FES . B FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? metalc ? metalc3 B SG CYS 97 B CYS 97 1_555 K FE1 FES . B FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? metalc ? metalc4 B SG CYS 109 B CYS 109 1_555 K FE1 FES . B FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? metalc ? metalc5 B SG CYS 182 B CYS 182 1_555 L FE3 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? metalc ? metalc6 B SG CYS 185 B CYS 185 1_555 L FE1 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? metalc ? metalc7 B SG CYS 188 B CYS 188 1_555 L FE2 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc8 B SG CYS 192 B CYS 192 1_555 M FE4 F3S . B F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? metalc ? metalc9 B SG CYS 239 B CYS 239 1_555 M FE1 F3S . B F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? metalc ? metalc10 B SG CYS 245 B CYS 245 1_555 M FE3 F3S . B F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? metalc ? metalc11 B SG CYS 249 B CYS 249 1_555 L FE4 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? metalc ? metalc12 C NE2 HIS 131 C HIS 131 1_555 N FE HEM . C HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? metalc ? metalc13 N FE HEM . C HEM 201 1_555 D NE2 HIS 95 D HIS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.31 ? metalc ? metalc14 F SG CYS 89 F CYS 89 1_555 S FE2 FES . F FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? metalc ? metalc15 F SG CYS 94 F CYS 94 1_555 S FE2 FES . F FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? metalc ? metalc16 F SG CYS 97 F CYS 97 1_555 S FE1 FES . F FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? metalc ? metalc17 F SG CYS 109 F CYS 109 1_555 S FE1 FES . F FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc18 F SG CYS 182 F CYS 182 1_555 T FE3 SF4 . F SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.304 ? metalc ? metalc19 F SG CYS 185 F CYS 185 1_555 T FE1 SF4 . F SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? metalc ? metalc20 F SG CYS 188 F CYS 188 1_555 T FE2 SF4 . F SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? metalc ? metalc21 F SG CYS 192 F CYS 192 1_555 U FE4 F3S . F F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? metalc ? metalc22 F SG CYS 239 F CYS 239 1_555 U FE1 F3S . F F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? metalc ? metalc23 F SG CYS 245 F CYS 245 1_555 U FE3 F3S . F F3S 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.233 ? metalc ? metalc24 F SG CYS 249 F CYS 249 1_555 T FE4 SF4 . F SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.418 ? metalc ? metalc25 G NE2 HIS 131 G HIS 131 1_555 V FE HEM . G HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? metalc ? metalc26 V FE HEM . G HEM 201 1_555 H NE2 HIS 95 H HIS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? # _chem_comp.formula 'C39 H68 N O8 P' _chem_comp.formula_weight 709.933 _chem_comp.id EPH _chem_comp.mon_nstd_flag . _chem_comp.name L-ALPHA-PHOSPHATIDYL-BETA-OLEOYL-GAMMA-PALMITOYL-PHOSPHATIDYLETHANOLAMINE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C1 C2 EPH sing 83 n n C1 O2 EPH sing 84 n n C1 H11 EPH sing 85 n n C1 H12A EPH sing 86 n n C2 C37 EPH sing 87 n n C2 O1 EPH sing 88 n n C2 H2 EPH sing 89 n n C4 O2 EPH sing 90 n n C4 O4 EPH doub 91 n n C4 C18 EPH sing 92 n n C18 C19 EPH sing 93 n n C18 H181 EPH sing 94 n n C18 H182 EPH sing 95 n n C19 C20 EPH sing 96 n n C19 H191 EPH sing 97 n n C19 H192 EPH sing 98 n n C20 C21 EPH sing 99 n n C20 H201 EPH sing 100 n n C20 H202 EPH sing 101 n n C21 C22 EPH sing 102 n n C21 H211 EPH sing 103 n n C21 H212 EPH sing 104 n n C22 C23 EPH sing 105 n n C22 H221 EPH sing 106 n n C22 H222 EPH sing 107 n n C23 C24 EPH sing 108 n n C23 H231 EPH sing 109 n n C23 H232 EPH sing 110 n n C24 C25 EPH doub 111 e n C24 H24 EPH sing 112 n n C25 C26 EPH sing 113 n n C25 H25 EPH sing 114 n n C26 C27 EPH sing 115 n n C26 H261 EPH sing 116 n n C26 H262 EPH sing 117 n n C27 C28 EPH sing 118 n n C27 H271 EPH sing 119 n n C27 H272 EPH sing 120 n n C28 C29 EPH doub 121 e n C28 H28 EPH sing 122 n n C29 C30 EPH sing 123 n n C29 H29 EPH sing 124 n n C30 C31 EPH sing 125 n n C30 H301 EPH sing 126 n n C30 H302 EPH sing 127 n n C31 C32 EPH sing 128 n n C31 H311 EPH sing 129 n n C31 H312 EPH sing 130 n n C32 C33 EPH doub 131 e n C32 H32 EPH sing 132 n n C33 C34 EPH sing 133 n n C33 H33 EPH sing 134 n n C34 H341 EPH sing 135 n n C34 H342 EPH sing 136 n n C34 H343 EPH sing 137 n n C37 O5 EPH sing 138 n n C37 H371 EPH sing 139 n n C37 H372 EPH sing 140 n n O5 P1 EPH sing 141 n n C3 O1 EPH sing 142 n n C3 O3 EPH doub 143 n n C3 C5 EPH sing 144 n n C5 C6 EPH sing 145 n n C5 H51 EPH sing 146 n n C5 H52 EPH sing 147 n n C6 C7 EPH sing 148 n n C6 H61 EPH sing 149 n n C6 H62 EPH sing 150 n n C7 C8 EPH sing 151 n n C7 H71 EPH sing 152 n n C7 H72 EPH sing 153 n n C8 C9 EPH sing 154 n n C8 H81 EPH sing 155 n n C8 H82 EPH sing 156 n n C9 C10 EPH sing 157 n n C9 H91 EPH sing 158 n n C9 H92 EPH sing 159 n n C10 C11 EPH sing 160 n n C10 H101 EPH sing 161 n n C10 H102 EPH sing 162 n n C11 C12 EPH sing 163 n n C11 H111 EPH sing 164 n n C11 H112 EPH sing 165 n n C12 C13 EPH doub 166 e n C12 H12 EPH sing 167 n n C13 C14 EPH sing 168 n n C13 H13 EPH sing 169 n n C14 C15 EPH sing 170 n n C14 H141 EPH sing 171 n n C14 H142 EPH sing 172 n n C15 C16 EPH doub 173 e n C15 H15 EPH sing 174 n n C16 C17 EPH sing 175 n n C16 H16 EPH sing 176 n n C17 C35 EPH sing 177 n n C17 H171 EPH sing 178 n n C17 H172 EPH sing 179 n n C35 C36 EPH sing 180 n n C35 H351 EPH sing 181 n n C35 H352 EPH sing 182 n n C36 H361 EPH sing 183 n n C36 H362 EPH sing 184 n n C36 H363 EPH sing 185 n n P1 O6 EPH sing 186 n n P1 O7 EPH doub 187 n n P1 O8 EPH sing 188 n n O6 HO6 EPH sing 189 n n O8 C38 EPH sing 190 n n C38 C39 EPH sing 191 n n C38 H381 EPH sing 192 n n C38 H382 EPH sing 193 n n C39 N1 EPH sing 194 n n C39 H391 EPH sing 195 n n C39 H392 EPH sing 196 n n N1 HN11 EPH sing 197 n n N1 HN12 EPH sing 198 n n # _atom_sites.entry_id 5C3J _atom_sites.fract_transf_matrix[1][1] 0.008081 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007885 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.004536 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code I 5 MLI A 1 701 701 MLI MLI . J 6 FAD A 1 702 702 FAD FAD . K 7 FES B 1 301 301 FES FES . L 8 SF4 B 1 302 302 SF4 SF4 . M 9 F3S B 1 303 303 F3S F3S . N 10 HEM C 1 201 201 HEM HEM . O 11 UQ1 C 1 202 301 UQ1 DRG . P 12 EPH D 1 201 201 EPH EPH . Q 5 MLI E 1 701 701 MLI MLI . R 6 FAD E 1 702 702 FAD FAD . S 7 FES F 1 301 301 FES FES . T 8 SF4 F 1 302 302 SF4 SF4 . U 9 F3S F 1 303 303 F3S F3S . V 10 HEM G 1 201 201 HEM HEM . W 11 UQ1 G 1 202 301 UQ1 DRG . X 12 EPH H 1 201 201 EPH EPH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C1 EPH . . . X 12 85.806 -59.942 83.091 0.6 95.54 ? C1 EPH 201 H 1 HETATM 2 C C2 EPH . . . X 12 86.593 -59.762 84.394 0.6 99.21 ? C2 EPH 201 H 1 HETATM 3 C C4 EPH . . . X 12 84.429 -58.172 81.812 0.6 83.15 ? C4 EPH 201 H 1 HETATM 4 O O2 EPH . . . X 12 85.619 -58.639 82.521 0.6 89.05 ? O2 EPH 201 H 1 HETATM 5 O O4 EPH . . . X 12 84.572 -57.272 80.997 0.6 81.47 ? O4 EPH 201 H 1 HETATM 6 C C18 EPH . . . X 12 83.044 -58.737 82.05 0.6 79.34 ? C18 EPH 201 H 1 HETATM 7 C C19 EPH . . . X 12 82.141 -57.671 82.669 0.6 76.94 ? C19 EPH 201 H 1 HETATM 8 C C20 EPH . . . X 12 81.306 -56.945 81.611 0.6 72.63 ? C20 EPH 201 H 1 HETATM 9 C C21 EPH . . . X 12 80.404 -55.865 82.216 0.6 68.68 ? C21 EPH 201 H 1 HETATM 10 C C22 EPH . . . X 12 81.201 -54.66 82.721 0.6 66.1 ? C22 EPH 201 H 1 HETATM 11 C C23 EPH . . . X 12 80.361 -53.399 82.936 0.6 62.58 ? C23 EPH 201 H 1 HETATM 12 C C24 EPH . . . X 12 80.158 -53.143 84.413 0.6 61.12 ? C24 EPH 201 H 1 HETATM 13 C C25 EPH . . . X 12 80.712 -52.097 85.028 0.6 61.12 ? C25 EPH 201 H 1 HETATM 14 C C26 EPH . . . X 12 80.473 -51.899 86.513 0.6 61.94 ? C26 EPH 201 H 1 HETATM 15 C C27 EPH . . . X 12 80.739 -50.458 86.952 0.6 61.53 ? C27 EPH 201 H 1 HETATM 16 C C28 EPH . . . X 12 80.656 -50.33 88.459 0.6 60.89 ? C28 EPH 201 H 1 HETATM 17 C C29 EPH . . . X 12 79.539 -49.906 89.056 0.6 59.45 ? C29 EPH 201 H 1 HETATM 18 C C30 EPH . . . X 12 79.486 -49.792 90.565 0.6 57.47 ? C30 EPH 201 H 1 HETATM 19 C C31 EPH . . . X 12 78.072 -49.459 91.029 0.6 56.09 ? C31 EPH 201 H 1 HETATM 20 C C37 EPH . . . X 12 87.387 -61.026 84.786 0.6 103.8 ? C37 EPH 201 H 1 HETATM 21 O O5 EPH . . . X 12 88.77 -60.972 84.376 0.6 105.07 ? O5 EPH 201 H 1 HETATM 22 C C3 EPH . . . X 12 84.669 -60.165 85.971 0.6 87.09 ? C3 EPH 201 H 1 HETATM 23 O O1 EPH . . . X 12 85.707 -59.273 85.434 0.6 95.79 ? O1 EPH 201 H 1 HETATM 24 O O3 EPH . . . X 12 85.011 -61.17 86.574 0.6 88.56 ? O3 EPH 201 H 1 HETATM 25 C C5 EPH . . . X 12 83.194 -59.837 85.8 0.6 79.59 ? C5 EPH 201 H 1 HETATM 26 C C6 EPH . . . X 12 82.322 -60.38 86.943 0.6 75.59 ? C6 EPH 201 H 1 HETATM 27 C C7 EPH . . . X 12 81.036 -61.033 86.422 0.6 74.33 ? C7 EPH 201 H 1 HETATM 28 C C8 EPH . . . X 12 80.256 -61.794 87.502 0.6 71.61 ? C8 EPH 201 H 1 HETATM 29 C C9 EPH . . . X 12 79.625 -63.103 87.004 0.6 71.01 ? C9 EPH 201 H 1 HETATM 30 C C10 EPH . . . X 12 78.173 -62.943 86.521 0.6 71.51 ? C10 EPH 201 H 1 HETATM 31 C C11 EPH . . . X 12 77.232 -64.097 86.902 0.6 68.71 ? C11 EPH 201 H 1 HETATM 32 C C12 EPH . . . X 12 76.861 -64.948 85.702 0.6 66.88 ? C12 EPH 201 H 1 HETATM 33 C C13 EPH . . . X 12 76.091 -66.023 85.86 0.6 65.43 ? C13 EPH 201 H 1 HETATM 34 C C14 EPH . . . X 12 75.73 -66.874 84.665 0.6 67.13 ? C14 EPH 201 H 1 HETATM 35 C C15 EPH . . . X 12 75.194 -68.22 85.113 0.6 69.8 ? C15 EPH 201 H 1 HETATM 36 C C16 EPH . . . X 12 74.947 -69.213 84.248 0.6 70.45 ? C16 EPH 201 H 1 HETATM 37 C C17 EPH . . . X 12 75.186 -69.058 82.761 0.6 69.01 ? C17 EPH 201 H 1 HETATM 38 P P1 EPH . . . X 12 89.987 -61.618 85.247 0.6 104.88 ? P1 EPH 201 H 1 HETATM 39 O O6 EPH . . . X 12 91.166 -60.683 85.182 0.6 104.02 ? O6 EPH 201 H 1 HETATM 40 O O7 EPH . . . X 12 89.471 -62.02 86.608 0.6 101.87 ? O7 EPH 201 H 1 HETATM 41 O O8 EPH . . . X 12 90.441 -62.964 84.472 0.6 92.98 ? O8 EPH 201 H 1 HETATM 42 C C38 EPH . . . X 12 90.758 -64.164 85.18 0.6 87.32 ? C38 EPH 201 H 1 HETATM 43 C C39 EPH . . . X 12 91.955 -63.986 86.109 0.6 85.59 ? C39 EPH 201 H 1 HETATM 44 N N1 EPH . . . X 12 93.173 -64.229 85.369 0.6 85.39 ? N1 EPH 201 H 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 44 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 44 #